Locus 5603

Sequence ID 2R_DroMel_CAF1
Location 17,870,155 – 17,870,355
Length 200
Max. P 0.832723
window8975 window8976

overview

Window 5

Location 17,870,155 – 17,870,275
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.42
Mean single sequence MFE -27.61
Consensus MFE -20.64
Energy contribution -21.28
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.75
SVM decision value 0.20
SVM RNA-class probability 0.628925
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17870155 120 - 20766785
UUACAAAUGGAGUGGGGAAAACAUUCUUACUUCAAGAAAAACUACUCAUUUUCAGCUGCUCUUAAGUACCUCUGCUCAUGCAUUUUGAAUGGCGAUGACGGAAAAACUUUGUCAUUUAAU
.......(((((((((((.....))))))))))).(((((........))))).(((..((..((.......(((....)))))..))..)))(((((((((.....))))))))).... ( -25.31)
>DroSec_CAF1 34989 120 - 1
UUACAAAUGCAGCGGGGAAAACAUUCUUAGUUUAAGAAAAACUACUCAUUUUCAGCUGCUCUUAAGUACCGCUGCUCAUGCAUUUUGAAUGGCGAUGACGGAAAAACUUUGUCAUUUAAU
........(((((((.(((((......((((((.....))))))....))))).(((.......))).))))))).........(((((((((((.............))))))))))). ( -28.52)
>DroSim_CAF1 35346 120 - 1
UUUCAAAUGCAGCGGGAAAAACAUUCUUAGUUUAAGAAAAACUACUCAUUUUCAGCUGCUCUUAAGUACCGCUGCUCAUGCAUUUUGAAUGGCGAUGACGGAAAAACUUUGUCAUUUAAU
.((((((.((((((((((((.......((((((.....))))))....))))).(((.......))).)))))))........))))))....(((((((((.....))))))))).... ( -28.00)
>DroEre_CAF1 37455 110 - 1
----------AGUGGGAAAAGCAUUCUUAGUUGAAGAAAAACUACUAAUUUUCAGCUGCUUUUAAGUACCGCUGCUCAUGCAUUUUGAAUGGCGAUGACGGGAAAAGUUUGUCAUUUAAU
----------(((((.(((((((......((((((((...........))))))))))))))).....)))))((....))...(((((((((((..((.......))))))))))))). ( -27.00)
>DroYak_CAF1 33936 120 - 1
UUGCAAAUGCAGUGGCGAAAACAUUCUUAGUUAAAGAAAAACUACUCAUUUUCAGCUACAUUUAAGUACCGCUGCUCAUGCAUUUUGAAUGGCGAUGAGGGAAAAACUUUGUCAUUUAAU
.((((...(((((((.(((((......(((((.......)))))....))))).(((.......))).)))))))...))))..(((((((((((...((......))))))))))))). ( -29.20)
>consensus
UUACAAAUGCAGUGGGGAAAACAUUCUUAGUUUAAGAAAAACUACUCAUUUUCAGCUGCUCUUAAGUACCGCUGCUCAUGCAUUUUGAAUGGCGAUGACGGAAAAACUUUGUCAUUUAAU
........(((((((........(((((.....)))))................(((.......))).))))))).........(((((((((((.............))))))))))). (-20.64 = -21.28 +   0.64)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 17,870,235 – 17,870,355
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.06
Mean single sequence MFE -27.25
Consensus MFE -23.27
Energy contribution -23.02
Covariance contribution -0.25
Combinations/Pair 1.12
Mean z-score -1.87
Structure conservation index 0.85
SVM decision value 0.72
SVM RNA-class probability 0.832723
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17870235 120 - 20766785
CCAGCUGCAUUUAACUACAAAUUAAUUAUUCGGUACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUACAAAUGGAGUGGGGAAAACAUUCUUACUUCAAGAAAA
...((.((.......................((((((....)).))))..((((....))))......)).))..............(((((((((((.....)))))))))))...... ( -24.10)
>DroSec_CAF1 35069 120 - 1
CCAGCUGCAUUUAACUGCAAAUUAAUUAUUCGGCACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUACAAAUGCAGCGGGGAAAACAUUCUUAGUUUAAGAAAA
((.((((((((....((.((.((((.....((((.((....))...(((.((((....)))))))...))))...)))).)).)))))))))).)).......((((((...)))))).. ( -29.00)
>DroSim_CAF1 35426 120 - 1
CCAGCUGCAUUUAACUGCAAAUUAUUUAUUCGGUACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUUCAAAUGCAGCGGGAAAAACAUUCUUAGUUUAAGAAAA
((.(((((((((.((((.((........)))))).......(((..(((.((((....)))))))...))).............))))))))).)).......((((((...)))))).. ( -28.30)
>DroYak_CAF1 34016 120 - 1
GCAGCUGCAUUUAACUGCAAAUUAAUUAUUGGGUACCUUAUGGCUAUCAAGUGAAGAUCUACAGAAAUGCCGCAUUUAAAUUGCAAAUGCAGUGGCGAAAACAUUCUUAGUUAAAGAAAA
((.((((((((....(((((.(((((((((.((((((....)).)))).))))).......((....))......)))).))))))))))))).)).......(((((.....))))).. ( -27.60)
>consensus
CCAGCUGCAUUUAACUGCAAAUUAAUUAUUCGGUACCUUAUGGCUAUCUAGUGGAGAUCUACAGAAACGCCGCAUUUAAAUUACAAAUGCAGCGGGGAAAACAUUCUUAGUUUAAGAAAA
((.(((((((((...(((.(((.....)))..)))......(((..(((.((((....)))))))...))).............))))))))).)).......(((((.....))))).. (-23.27 = -23.02 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:42 2006